Placement of Digital Microfluidic Biochips via a New Evolutionary Algorithm

Author:

Jiang Chen1,Yuan Bo1,Ho Tsung-Yi2,Yao Xin3

Affiliation:

1. Southern University of Science and Technology, Shenzhen, Guangdong, China

2. National Tsing Hua University, Hsinchu, Taiwan

3. Southern University of Science and Technology and University of Birmingham, Birmingham, UK

Abstract

Digital microfluidic biochips (DMFBs) have been a revolutionary platform for automating and miniaturizing laboratory procedures with the advantages of flexibility and reconfigurability. The placement problem is one of the most challenging issues in the design automation of DMFBs. It contains three interacting NP-hard sub-problems: resource binding, operation scheduling, and module placement. Besides, during the optimization of placement, complex constraints must be satisfied to guarantee feasible solutions, such as precedence constraints, storage constraints, and resource constraints. In this article, a new placement method for DMFB is proposed based on an evolutionary algorithm with novel heuristic-based decoding strategies for both operation scheduling and module placement. Specifically, instead of using the previous list scheduler and path scheduler for decoding operation scheduling chromosomes, we introduce a new heuristic scheduling algorithm (called order scheduler) with fewer limitations on the search space for operation scheduling solutions. Besides, a new 3D placer that combines both scheduling and placement is proposed where the usage of the microfluidic array over time in the chip is recorded flexibly, which is able to represent more feasible solutions for module placement. Compared with the state-of-the-art placement methods (T-tree and 3D-DDM), the experimental results demonstrate the superiority of the proposed method based on several real-world bioassay benchmarks. The proposed method can find the optimal results with the minimum assay completion time for all test cases.

Funder

National Natural Science Foundation of China

Guangdong Provincial Key Laboratory

Program for Guangdong Introducing Innovative and Entrepreneurial Teams

Shenzhen Science and Technology Program

Publisher

Association for Computing Machinery (ACM)

Subject

Electrical and Electronic Engineering,Computer Graphics and Computer-Aided Design,Computer Science Applications

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